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120,775 results • Page
1 of 2416
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0
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0
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29
views
How to normalise Nanopore mRNA sequencing data between two cell lines
Nanopore
RNAseq
Normalization
3 hours ago by
Mo
▴ 50
0
votes
0
replies
197
views
Can I combine segment results from Sequenza and cnvkit?
CNV
sequenza
cnvkit
5 hours ago by
Ram
45k
0
votes
0
replies
50
views
Using bulk RNA-seq DE results to perform PCA in single cell RNA-seq
Single-cell
scRNAseq
updated 5 hours ago by
Ram
45k • written 8 hours ago by
Oli
• 0
835
votes
169
replies
170k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 6 months ago by
Biostar
3.4k • written 8.3 years ago by
Istvan Albert
102k
2
votes
5
replies
4.1k
views
Python library for parsing bcftools stats file
bcftools
updated 8 hours ago by
Pierre Lindenbaum
165k • written 7.6 years ago by
William
★ 5.3k
0
votes
1
reply
79
views
Remove site with only missing data
Fasta
updated 10 hours ago by
Pierre Lindenbaum
165k • written 10 hours ago by
Leane
• 0
0
votes
0
replies
50
views
Manta SV (specially Translocation)
StructuralVariant
8 hours ago by
Nai
▴ 50
0
votes
3
replies
334
views
Cytoscape COLOUR EDGES
Reulatory
Cytoscape
Networks
updated 11 hours ago by
Scooter
▴ 280 • written 8 days ago by
SKY
▴ 60
2
votes
2
replies
1.0k
views
How to perform PPI network analysis in STRING for newly sequenced bacterial genome ?
Proteomics
cytoscape
network
STRING
updated 11 hours ago by
Scooter
▴ 280 • written 3.8 years ago by
Kumar
▴ 120
0
votes
0
replies
57
views
How to perform burden test using plink /seq
Burden
Test
13 hours ago by
aiswaryabioinfo
▴ 30
0
votes
3
replies
104
views
Higher number of reads mapped to transcriptome vs genome in star mapping
riboseq
star
bam
transcriptome
alignment
updated 13 hours ago by
i.sudbery
21k • written 14 hours ago by
paguirreazorin
• 0
1
vote
3
replies
158
views
Visualsation_of_reads depth
read_depth_measure
variant
calling
coverage
updated 11 hours ago by
GenoMax
150k • written 15 hours ago by
AIMAR
• 0
7
votes
5
replies
615
views
Tool:
AliNe (Alignment in Nextflow)
nextflow
alignment
15 hours ago by
Juke34
9.2k
0
votes
0
replies
51
views
construct PKN
REGULATORY
PKN
MOUSE
NETWORKS
GENE
16 hours ago by
rahma.khoualdia
• 0
2
votes
2
replies
143
views
Tool for automatic immune cell annotation in MOUSE?
immune
single-cell
annotation
updated 13 hours ago by
theHumanBorch
▴ 260 • written 18 hours ago by
txema.heredia
▴ 210
4
votes
12
replies
7.0k
views
12 follow
How to draw venn diagram for two CNV lists?
venn
updated 18 hours ago by
5heikki
11k • written 10.3 years ago by
lyz10302012
▴ 480
0
votes
2
replies
111
views
merging diploid and tetraploid vcfs
bcftools
diploid
tetraploid
9 hours ago by
analyst
▴ 60
0
votes
0
replies
63
views
TMM normalized CPM
TPM
CPM
TMM
20 hours ago by
maryak
▴ 20
2
votes
3
replies
165
views
Downloading full list of Homo sapiens genes
Genes
updated 21 hours ago by
GenoMax
150k • written 1 day ago by
nigussie.amu
• 0
0
votes
0
replies
61
views
Normlizatiom in DiffBind
DiffBind
CHIP-Seq
22 hours ago by
Siqi
• 0
0
votes
1
reply
90
views
Obtain genome coordinates for a DNA sequence using ENSEMBL API
Ensembl
API
updated 23 hours ago by
GenoMax
150k • written 1 day ago by
Ishan
• 0
0
votes
0
replies
72
views
Forum:
Decoding Corvid Intelligence: Genomics, AI & the Genetics of Cognition
neurogenetics
comparative-genomics
bioinformatics
genomics
machine-learning
updated 1 day ago by
Ram
45k • written 1 day ago by
EvoGenExplorer
• 0
2
votes
3
replies
186
views
GBWT Construction Error: "Sources X and Y both have node Z" When Building GBZ from GFA
vg
updated 1 day ago by
Jouni Sirén
▴ 580 • written 1 day ago by
Sauers
▴ 10
8
votes
16
replies
457
views
6 follow
prokka with too many "hypothetical proteins" and genome comparison
comparison
genome
galaxy
prokka
15 hours ago by
avinci1
▴ 20
0
votes
1
reply
144
views
Split paired ended hWGS FASTq files to simulate difference sequence coverage
whole-genome-sequencing
wgs
FASTQ
coverage
updated 1 day ago by
shelkmike
★ 1.5k • written 1 day ago by
DJBill
▴ 20
0
votes
8
replies
303
views
OMA use case
oma
omastandalone
5 hours ago by
nmalexan
• 0
0
votes
0
replies
88
views
News:
Machine Learning for Longitudinal Data with Python – Online Course (6-9 May)
MachineLearning
LongitudinalData
DeepLearning
Omics
1 day ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
163
views
Recommended workflow to pre-process and demultiplex scRNAseq data based on the HTOs and ADTs
ADT
HTO
demultiplexing
scRNAseq
updated 1 day ago by
GenoMax
150k • written 1 day ago by
mete.han.celebi
• 0
0
votes
3
replies
153
views
bwa-mem keeps failing to locate the index files
bwa
bwa-mem
updated 1 day ago by
ATpoint
87k • written 1 day ago by
pairedttest
▴ 30
1
vote
5
replies
329
views
6 follow
Efficient Gene Prediction on Large Eukaryotic Genomes
tools
prediction
gene
updated 1 day ago by
Joe
22k • written 3 days ago by
Shuo
• 0
0
votes
0
replies
80
views
Olink - OlinkAnalyze Package - olink_umap_plot function
Olink
proteomics
1 day ago by
kristina
• 0
3
votes
0
replies
111
views
Herald:
The Biostar Herald for Wednesday, March 19, 2025
herald
1 day ago by
Biostar
3.4k
0
votes
0
replies
92
views
Cosmic database update issue in annovar
annovar
cosmic
genomics
updated 1 day ago by
Ram
45k • written 1 day ago by
abhijitswain
• 0
1
vote
1
reply
263
views
Transforming diploid GT on male X and Y chromosome to haploid
VCF
genotype
gVCF
1 day ago by
Michaela
▴ 10
3
votes
2
replies
219
views
How do I figure out pangenome location of hg38 coordinates?
pangenome
hg38
vg
2 days ago by
a5864557
▴ 10
4
votes
7
replies
357
views
How I can curate all exon start-end positions for 50 genes (to create GTF file)?
gtf
curation
gene
updated 11 hours ago by
GenoMax
150k • written 2 days ago by
Esra
• 0
0
votes
0
replies
110
views
generating manhattan plot through hail
plot
manhattan
hail
visualizations
gwas
2 days ago by
nitya
• 0
0
votes
0
replies
112
views
Hard Filtering Differences between WES and WGS
WES
WGS
Hard-Filtering
updated 1 day ago by
Ram
45k • written 2 days ago by
SIMONE
• 0
0
votes
3
replies
224
views
Am I accounting for replicates correctly in pseudobulk analysis?
deseq2
single-cell
pseudobulk
updated 1 day ago by
ATpoint
87k • written 2 days ago by
Aspire
▴ 370
2
votes
4
replies
355
views
Is there too little variation to detect meaningful gene changes?
DESEQ
updated 2 days ago by
Istvan Albert
102k • written 4 days ago by
Megan
▴ 50
2
votes
4
replies
260
views
nanopore SNV callers returns empty VCF
snv_caller
nanopore
22 hours ago by
Meghan.T
• 0
15
votes
3
replies
1.1k
views
Tutorial:
Avoiding the Pitfalls of the Anaconda License: A Practical Guide
conda
Anaconda
license
1 day ago by
Juke34
9.2k
0
votes
2
replies
184
views
How many cells are needed in subcluster to draw conclusions?
immunology
T-cells
scRNA-seq
12 hours ago by
S
• 0
0
votes
1
reply
151
views
Question about assigning gene names, tximport and DESeq2
tximport
deseq2
updated 2 days ago by
Istvan Albert
102k • written 2 days ago by
bioinfo
▴ 150
3
votes
3
replies
260
views
RNASeq: Confused about adapters with barcodes and seq company's filtering
atria
rnaseq
adapter-trimming
updated 23 hours ago by
GenoMax
150k • written 2 days ago by
Davor
• 0
1
vote
2
replies
216
views
VEP won't show symbols for all variants; SnpEff will, but won't for others
vep
snpeff
updated 2 days ago by
Jeremy Leipzig
23k • written 3 days ago by
mary.v.volkova
▴ 20
0
votes
2
replies
167
views
How to plot LMER estimate values in heatmap ?
cell
scRNAseq
TF
lmer
transcription
1 day ago by
carolofharvest
▴ 50
1
vote
2
replies
962
views
News:
Final Call - Next-Generation Sequencing Data Analysis: A Practical Introduction (April 2-4 in Munich) - Only 2 seats left
Workshop
RNAseq
Variant-Calling
Illumina
DNAseq
2 days ago by
ecSeq Bioinformatics
▴ 10
0
votes
1
reply
158
views
Guidance Needed: Best Practices for Handling Technical Replicates in RNA-seq Analysis
tehnical-replicates
DESeq2
RNA-Seq
updated 2 days ago by
Ram
45k • written 2 days ago by
hellothere
• 0
0
votes
2
replies
184
views
Can anyone help me download the dbSNP data for Bos taurus ARS-UCD1.3?
bioinformatics
GWAS
genetics
WGS
21 hours ago by
K
• 0
120,775 results • Page
1 of 2416
Recent Votes
Converting TSV file to VCF
CNV detection
How to figure out adapter sequence to use for trimming old miRNAseq data
Answer: How to figure out adapter sequence to use for trimming old miRNAseq data
FeatureCounts for miRNAseq
Answer: Problem with Fastqc quality control for miRNAseq data
How to get count matrix from aligned file
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Recent Replies
Comment: OMA use case
by
nmalexan
• 0
After Ive exported the tar file: Do I set the outgroup based on my genomes only, or including the imported data? When I untar this file …
Answer: Python library for parsing bcftools stats file
by
Pierre Lindenbaum
165k
see the multiqc code for bcftools/stats : https://github.com/MultiQC/MultiQC/blob/main/multiqc/modules/bcftools/stats.py
Comment: Python library for parsing bcftools stats file
by
Wayne
★ 2.1k
>"These text stats files contains some tab delimited tables and key value pairs ..." At least for tab delimited tables this is a more gene…
Comment: Extract UMIs using UMI-tools
by
i.sudbery
21k
This seems like a new question. Can you please start a new question post for it, rather than commenting on an old one?
Comment: Extract UMIs using UMI-tools
by
Agastya
▴ 10
I was wondering, if Read 2 has barcode:UMI at 5' end and Read 1 has barcode:UMI at 3' end, is umi-tools extract able to identify that the b…
Comment: merging diploid and tetraploid vcfs
by
analyst
▴ 60
I used freebayes for variant calling setting --ploidy 4 for tetraploid samples and --ploidy 2 for diploid samples.
Comment: Remove site with only missing data
by
Pierre Lindenbaum
165k
that's not clear to me. Give us an example.
Comment: OMA use case
by
Adrian Altenhoff
★ 1.1k
slightly different format is required. simply add all the fasta headers on the same line, separated by a `;` character: ``` ENSMUSG0000003…
Comment: Python library for parsing bcftools stats file
by
Jen
• 0
I'm attempting to do the same thing. Did you find a solution?
Comment: OMA use case
by
nmalexan
• 0
What ive done is, for each gene ID, I list all the unique transcript IDs like so ENSMUSG00000089707.1 ENSMUST00000160117.1 ENSMUSG…
Comment: Visualsation_of_reads depth
by
GenoMax
150k
> I also ran samtools depth, mosdepth and pandepth. each generated sequencing depth results. Then plot the results in way you want.
Comment: OMA use case
by
nmalexan
• 0
Thank you!! That answers my question.
Comment: OMA use case
by
nmalexan
• 0
Re: I don't understand your question exactly. Are you asking if you can place your proteins into existing gene families and extract the ort…
Comment: How I can curate all exon start-end positions for 50 genes (to create GTF file)?
by
GenoMax
150k
Glad you found a solution using UCSC table browser. Good luck!
Comment: cytoscape Stringdb identifiers can't be mapped to uniprot or ensembl
by
Scooter
▴ 280
Well, unfortunately, it's not something that we can change easily. You could probably use the Display name and map it to Uniprot, though.
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